miRNA display CGI


Results 1 - 20 of 30 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23885 3' -56.8 NC_005262.1 + 5084 0.66 0.650903
Target:  5'- cGCGUgCGAccGGCUCGGCGGugcGCGcCCGg -3'
miRNA:   3'- -UGCAaGCUu-UCGGGCCGCU---CGCaGGU- -5'
23885 3' -56.8 NC_005262.1 + 6278 0.66 0.70108
Target:  5'- cGCGgUCGAu-GCCCGGCGcgacgcugaacuucGGCG-CCu -3'
miRNA:   3'- -UGCaAGCUuuCGGGCCGC--------------UCGCaGGu -5'
23885 3' -56.8 NC_005262.1 + 7136 0.73 0.278522
Target:  5'- cUGUUCGAugaagcGAGCCUuGCGGGCGUUCAu -3'
miRNA:   3'- uGCAAGCU------UUCGGGcCGCUCGCAGGU- -5'
23885 3' -56.8 NC_005262.1 + 8865 0.66 0.672359
Target:  5'- aGCGcagCGAcacGCCCGGC-AGCGUCa- -3'
miRNA:   3'- -UGCaa-GCUuu-CGGGCCGcUCGCAGgu -5'
23885 3' -56.8 NC_005262.1 + 10075 0.67 0.618618
Target:  5'- cGCGUUCGAgcGCCaCGGCcuucGAcGCGgCCGg -3'
miRNA:   3'- -UGCAAGCUuuCGG-GCCG----CU-CGCaGGU- -5'
23885 3' -56.8 NC_005262.1 + 14926 0.66 0.683038
Target:  5'- gACG-UCGGAcaguuGCgCGGgGuGCGUCCAg -3'
miRNA:   3'- -UGCaAGCUUu----CGgGCCgCuCGCAGGU- -5'
23885 3' -56.8 NC_005262.1 + 18575 0.66 0.69367
Target:  5'- gGCGUUCaGGccGAGCCCGGCGGaCaugCCGc -3'
miRNA:   3'- -UGCAAG-CU--UUCGGGCCGCUcGca-GGU- -5'
23885 3' -56.8 NC_005262.1 + 19115 0.67 0.596064
Target:  5'- cACGUUCGGAucgGGCgCgGGCGcgucgccGGCGUCUu -3'
miRNA:   3'- -UGCAAGCUU---UCG-GgCCGC-------UCGCAGGu -5'
23885 3' -56.8 NC_005262.1 + 20109 0.67 0.629381
Target:  5'- cCGcgCGAAuucGGCCCGGCuuggcuuGCGUUCAg -3'
miRNA:   3'- uGCaaGCUU---UCGGGCCGcu-----CGCAGGU- -5'
23885 3' -56.8 NC_005262.1 + 20573 0.66 0.650903
Target:  5'- ----aCGAGcAGCCCGGCGAGCa---- -3'
miRNA:   3'- ugcaaGCUU-UCGGGCCGCUCGcaggu -5'
23885 3' -56.8 NC_005262.1 + 21640 0.66 0.683038
Target:  5'- gACGaUCGGccgcgaccGGGCCCGGCGccGCGUagaCCGg -3'
miRNA:   3'- -UGCaAGCU--------UUCGGGCCGCu-CGCA---GGU- -5'
23885 3' -56.8 NC_005262.1 + 23371 0.66 0.661644
Target:  5'- cGCGgcggCGAAGGCCCGcaacGUGAaGCG-CCAc -3'
miRNA:   3'- -UGCaa--GCUUUCGGGC----CGCU-CGCaGGU- -5'
23885 3' -56.8 NC_005262.1 + 27069 0.68 0.533619
Target:  5'- cGCGUUCGugcgcGAGCUCGGCGA-CaUCCGc -3'
miRNA:   3'- -UGCAAGCu----UUCGGGCCGCUcGcAGGU- -5'
23885 3' -56.8 NC_005262.1 + 29778 0.69 0.502741
Target:  5'- gGCGcaCGAugcGGCCCGGCGucacGCcGUCCGc -3'
miRNA:   3'- -UGCaaGCUu--UCGGGCCGCu---CG-CAGGU- -5'
23885 3' -56.8 NC_005262.1 + 30866 0.74 0.24574
Target:  5'- aGCGaucgUGAAGGCgCUGGCGAGCGUCg- -3'
miRNA:   3'- -UGCaa--GCUUUCG-GGCCGCUCGCAGgu -5'
23885 3' -56.8 NC_005262.1 + 32811 0.66 0.65735
Target:  5'- cGCGUUCGAcgucggccucauGUCCGGCGA-CGUCg- -3'
miRNA:   3'- -UGCAAGCUuu----------CGGGCCGCUcGCAGgu -5'
23885 3' -56.8 NC_005262.1 + 34549 0.66 0.704246
Target:  5'- cACGUUCc--AGCUCGGCGA-CGaUCCGa -3'
miRNA:   3'- -UGCAAGcuuUCGGGCCGCUcGC-AGGU- -5'
23885 3' -56.8 NC_005262.1 + 35408 0.67 0.607867
Target:  5'- cGCGcaCGcuccAGCCCGGCGAcGUGUUCGu -3'
miRNA:   3'- -UGCaaGCuu--UCGGGCCGCU-CGCAGGU- -5'
23885 3' -56.8 NC_005262.1 + 41590 0.67 0.586433
Target:  5'- aGCuugUCGAgcgcGAGCCCGGCGuucucGGCuUCCAg -3'
miRNA:   3'- -UGca-AGCU----UUCGGGCCGC-----UCGcAGGU- -5'
23885 3' -56.8 NC_005262.1 + 42323 0.7 0.44353
Target:  5'- cACGUUCGugaccGGGUUCGGCGAGgaauccgaacCGUCCGc -3'
miRNA:   3'- -UGCAAGCu----UUCGGGCCGCUC----------GCAGGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.